hicream: HIC diffeREntial Analysis Method
Perform Hi-C data differential analysis based on pixel-level differential analysis and a post hoc inference strategy to quantify signal in clusters of pixels. Clusters of pixels are obtained through a connectivity-constrained two-dimensional hierarchical clustering.
| Version: | 0.0.2 |
| Depends: | R (≥ 4.0.0),reticulate |
| Imports: | adjclust,auk,BiocGenerics,csaw,diffHic,dplyr,edgeR,GenomeInfoDb,GenomicRanges,InteractionSet,limma,Matrix, methods,reshape2,rlang,S4Vectors, stats,SummarizedExperiment, utils,viridis |
| Suggests: | knitr,rmarkdown |
| Published: | 2025-11-19 |
| DOI: | 10.32614/CRAN.package.hicream |
| Author: | Elise Jorge [aut, cre], Sylvain Foissac [aut], Toby Hocking [aut], Pierre Neuvial [aut], Nathalie Vialaneix [aut], Gilles Blanchard [ctb], Guillermo Durand [ctb], Nicolas Enjalbert-Courrech [ctb], Etienne Roquain [ctb] |
| Maintainer: | Elise Jorge <elise.jorge at inrae.fr> |
| BugReports: | https://forge.inrae.fr/scales/hicream/-/issues |
| License: | GPL (≥ 3) |
| URL: | https://forge.inrae.fr/scales/hicream |
| NeedsCompilation: | no |
| SystemRequirements: | Python (>= 3.9) |
| Materials: | README,NEWS |
| CRAN checks: | hicream results |
Documentation:
| Reference manual: | hicream.html ,hicream.pdf |
| Vignettes: | Installation instructions for hicream (source,R code) Introduction to hicream (source,R code) |
Downloads:
| Package source: | hicream_0.0.2.tar.gz |
| Windows binaries: | r-devel:hicream_0.0.2.zip, r-release:hicream_0.0.2.zip, r-oldrel:hicream_0.0.2.zip |
| macOS binaries: | r-release (arm64):hicream_0.0.1.tgz, r-oldrel (arm64):hicream_0.0.1.tgz, r-release (x86_64): not available, r-oldrel (x86_64): not available |
| Old sources: | hicream archive |
Linking:
Please use the canonical formhttps://CRAN.R-project.org/package=hicreamto link to this page.